Understanding how marine food webs are affected by anthropogenic stressors is an important steppingstone toward the improved management of natural resources. Stable isotope analysis of historical and modern samples spanning a century indicated that the niche breadth of an exploited fish community increased after the expansion of New Zealand fisheries. Since the 2000s most species increased their reliance on food webs supported by pelagic production and shifted to a higher trophic level. Overall changes were coincident with ocean warming, climate oscillations, prey abundance and fishing intensity, but their effects were specific to each fish assemblage analyzed. Data derived from historical samples revealed how anthropogenic stressors can drive long-term shifts in the trophic structure of an exploited fish community.